Results 11 to 20 of about 24,194,770 (306)
SARS transmission pattern in Singapore reassessed by viral sequence variation analysis. [PDF]
PLoS Medicine, 2005 BackgroundEpidemiological investigations of infectious disease are mainly dependent on indirect contact information and only occasionally assisted by characterization of pathogen sequence variation from clinical isolates.
Jianjun Liu +8 more
doaj +4 more sources
VIRMOTIF: A User-Friendly Tool for Viral Sequence Analysis. [PDF]
Genes (Basel), 2021 Bioinformatics and computational biology have significantly contributed to the generation of vast and important knowledge that can lead to great improvements and advancements in biology and its related fields. Over the past three decades, a wide range of tools and methods have been developed and proposed to enhance performance, diagnosis, and ...
Rajaei P +5 more
europepmc +5 more sources
Scalable Tools for High-throughput Viral Sequence Analysis [PDF]
, 2018 Viral sequence data are increasingly being used to estimate evolutionary and epidemiological parameters to understand the dynamics of viral diseases. This thesis focuses on developing novel and improved computational methods for high-throughput analysis of large viral sequence datasets.
openaire +4 more sources
A Method for the Analysis of African Swine Fever by Viral Metagenomic Sequencing [PDF]
Frontiers in Veterinary Science, 2021 In 2018, there was an outbreak of African swine fever (ASF) in China, which spread to other provinces in the following 3 years and severely damaged China's pig industry. ASF is caused by the African swine fever virus (ASFV). Given that the genome of the African swine fever virus is very complex and whole genome information is currently inadequate, it ...
ChiHai Ji +58 more
openaire +3 more sources
High-throughput sequencing (HTS) for the analysis of viral populations
Infection, Genetics and Evolution, 2020 The development of High-Throughput Sequencing (HTS) technologies is having a major impact on the genomic analysis of viral populations. Current HTS platforms can capture nucleic acid variation across millions of genes for both selected amplicons and full viral genomes.
Marcos Pérez-Losada +6 more
openaire +6 more sources
VIROME: a standard operating procedure for analysis of viral metagenome sequences [PDF]
Standards in Genomic Sciences, 2012 One consistent finding among studies using shotgun metagenomics to analyze whole viral communities is that most viral sequences show no significant homology to known sequences. Thus, bioinformatic analyses based on sequence collections such as GenBank nr, which are largely comprised of sequences from known organisms, tend to ignore a majority of ...
Wommack, K. Eric +8 more
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An Assessment of Amplicon-Sequencing Based Method for Viral Intrahost Analysis [PDF]
Virologica Sinica, 2018 RNA virus features the high per-generation mutation rate, and thus usually exists as a population presenting intrahost diversity. By the aids of deep sequencing and bioinformatic techniques, recent studies have provided new insights into viral intrahost evolution and viral-host interaction.
Ming Ni, Chen Chen, Di Liu
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Viral Metagenomics: Analysis of Begomoviruses by Illumina High-Throughput Sequencing [PDF]
Viruses, 2014 Traditional DNA sequencing methods are inefficient, lack the ability to discern the least abundant viral sequences, and ineffective for determining the extent of variability in viral populations. Here, populations of single-stranded DNA plant begomoviral genomes and their associated beta- and alpha-satellite molecules (virus-satellite complexes) (genus,
Idris, Ali +5 more
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Epidemiological data analysis of viral quasispecies in the next-generation sequencing era [PDF]
Briefings in Bioinformatics, 2020 Abstract The unprecedented coverage offered by next-generation sequencing (NGS) technology has facilitated the assessment of the population complexity of intra-host RNA viral populations at an unprecedented level of detail. Consequently, analysis of NGS datasets could be used to extract and infer crucial epidemiological and biomedical ...
Sergey Knyazev +3 more
openaire +3 more sources
Alvira : comparative genomics of viral strains [PDF]
, 2007 The Alvira tool is a general purpose multiple sequence alignment viewer with a special emphasis on the comparative analysis of viral genomes. This new tool has been devised specifically to address the problem of the simultaneous analysis of a large ...
Fremez, Romain +7 more
core +1 more source